Activity profiling of platelets by chemical proteomics

Proteomics

Volumn 9, Issue 1, 2009, Pages 40-50

  Wong, Jason W H ^a   McRedmond, James P ^a   Cagney, Gerard ^a  

^a UNIVERSITY COLLEGE DUBLIN   (Ireland)

Author keywords

Affinity chromatography; Chemical proteomics; Label free quantification; Nucleo tides; Platelets

Indexed keywords

ADENOSINE TRIPHOSPHATE; CYCLIC AMP; CYCLIC GMP; NUCLEOTIDE; NUCLEOTIDE BINDING PROTEIN; PROTEOME;

AFFINITY CHROMATOGRAPHY; AMINO ACID SEQUENCE; ARTICLE; CELL LYSATE; COMPARATIVE STUDY; CONTROLLED STUDY; FUNCTIONAL PROTEOMICS; HUMAN; HUMAN CELL; IMMUNOBLOTTING; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MOLECULAR PROBE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEOMICS; QUANTITATIVE ANALYSIS; TECHNOLOGY; THROMBOCYTE; UNINDEXED SEQUENCE; CHEMISTRY; ENZYME SPECIFICITY; METABOLISM; METHODOLOGY; PROTEIN BINDING; TANDEM MASS SPECTROMETRY; THROMBOCYTE ACTIVATION;

ADENOSINE TRIPHOSPHATE; BLOOD PLATELETS; CHROMATOGRAPHY, AFFINITY; CYCLIC AMP; CYCLIC GMP; HUMANS; NUCLEOTIDES; PLATELET ACTIVATION; PROTEIN BINDING; PROTEOME; PROTEOMICS; SUBSTRATE SPECIFICITY; TANDEM MASS SPECTROMETRY;

EID: 59449102709     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.200800185     Document Type: Article

References (46)

1. Washburn, M. P., Wolters, D., Yates, J. R., Large-scale analysis of the yeast proteome by multidimensional protein identification technology. Nat. Biotechnol. 2001, 19, 242-247.
2. Aebersold, R., Mann, M., Mass spectrometry-based prote-omics. Nature 2003, 422, 198-207.
3. Huber, L. A., Pfaller, K., Vietor, I., Organelle proteomics -implications for subcellular fractionation in proteomics. Circ. Res. 2003, 92, 962-968.
4. Jung, E., Heller, M., Sanchez, J. C., Hochstrasser, D. F., Proteomics meets cell biology: The establishment of subcellular proteomes. Electrophoresis 2000, 21, 3369-3377.
5. Bouwmeester, T., Bauch, A., Ruffner, H., Angrand, P. O. et al., A physical and functional map of the human TNF-alpha NF-kappa b signal transduction pathway. Nat. Cell Biol. 2004, 6, 97.
6. Speers, A. E., Cravatt, B. F., Profiling enzyme activities in vivo using click chemistry methods. Chem. Biol. 2004, 11, 535-546.
7. Ito, J., Heazlewood, J. L., Millar, A. H., Analysis of the soluble ATP-binding proteome of plant mitochondria identifies new proteins and nucleotide triphosphate interactions within the matrix. J. Proteome Res. 2006, 5, 3459-3469.
8. Scholten, A., Poh, M. K., van Veen, T. A. B., van Breukelen, B. et al., Analysis of the cGMP/cAMP interactome using a chemical proteomics approach in mammalian heart tissue validates sphingosine kinase type 1-interacting protein as a genuine and highly abundant AKAP. J. Proteome Res. 2006, 5, 1435-1447.
9. Prescher, J. A., Bertozzi, C. R., Chemistry in living systems. Nat. Chem. Biol. 2005, 1, 13-21.
10. Davi, G., Patrono, C., Platelet activation and athero-thrombosis. N. Engl. J. Med. 2007, 357, 2482-2494.
11. Handin, R. I., Platelets and coronary artery disease. N. Engl. J. Med. 1996, 334, 1126-1128.
12. Packham, M. A., Mustard, J. F., Platelet aggregation and adenosine diphosphate/adenosine triphosphate receptors: A historical perspective. Semin. Thromb. Hemost. 2005, 31, 129-138.
13. Schwarz, U. R., Walter, U., Eigenthaler, M., Taming platelets with cyclic nucleotides. Biochem. Pharmacol. 2001, 62, 1153-1161.
14. Coppinger, J. A., O'Connor, R., Wynne, K., Flanagan, M. et al., Moderation of the platelet releasate response by aspirin. Blood 2007, 109, 4786-4792.
15. Eng, J. K., McCormack, A. L., Yates, J. R., An approach to correlate tandem mass spectra data of peptides with amino acid sequences in a protein database. J. Am. Soc. Mass Spectrom. 1994, 5, 976.
16. Tanner, S., Shu, H. J., Frank, A., Wang, L. C. et al., InsPecT: Identification of posttranslationally modified peptides from tandem mass spectra. Anal. Chem. 2005, 77, 4626-4639.
17. Liu, H. B., Sadygov, R. G., Yates, J. R., A model for random sampling and estimation of relative protein abundance in shotgun proteomics. Anal. Chem. 2004, 76, 4193-4201.
18. Zhang, B., VerBerkmoes, N., Langston, M., Uberbacher, E. et al., Detecting differential and correlated protein expression in label-free shotgun proteomics. J. Proteome Res. 2006, 5, 2909-2918.
19. Huang, D. W., Sherman, B. T., Tan, Q., Collins, J. R. et al., The DAVID gene functional classification tool: A novel biological module-centric algorithm to functionally analyze large gene lists. Genome Biol. 2007, 8.
20. Elston,T., Wang, H. Y., Oster, G., Energy transduction in ATP synthase. Nature 1998, 391, 510-513.
21. Cohen, P., The regulation of protein function by multisite phosphorylation - A 25 year update. Trends Biochem. Sci. 2000, 25, 596-601.
22. Chen, C. Y., Balch, W. E., The HSP90 chaperone complex regulates GDI-dependent rab recycling. Mol. Biol. Cell 2006, 17, 3494-3507.
23. Patil, S., Jedsadayanmata, A., Wencel-Drake, J. D., Wang, W. et al., Identification of a talin-binding site in the integrin beta(3) subunit distinct from the NPLY regulatory motif of post-ligand binding functions - The talin N-terminal head domain interacts with the membrane-proximal region of the beta(3) cytoplasmic tail. J. Biol. Chem. 1999, 274, 28575-28583.
24. Bennett, J. S., Structure and function of the platelet integrin alpha(iib)beta(3). J. Clin. Invest. 2005, 115, 3363-3369.
25. Jiang, H., Colbran, J. L., Francis, S. H., Corbin, J. D., Direct evidence for cross-activation of cGMP-dependent protein-kinase by cAMP in pig coronary-arteries. J. Biol. Chem. 1992, 267, 1015-1019.
26. Lai, K. C., Flaumenhaft, R., Snare protein degradation upon platelet activation: Calpain cleaves snap-23. J. Cell. Physiol. 2003, 194, 206-214.
27. Feinstein, M. B., Fraser, C., Human platelet secretion and aggregation induced by calcium ionophores - Inhibition by Pge1 and dibutyryl cyclic-AMP. J. Gen. Physiol. 1975, 66, 561-581.
28. Brogren, H., Karlsson, L., Andersson, M., Wang, L. W. et al., Platelets synthesize large amounts of active plasminogen activator inhibitor 1. Blood 2004, 104, 3943-3948.
29. Kieffer, N., Guichard, J., Farcet, J. P., Vainchenker, W., Bretongorius, J., Biosynthesis of major platelet proteins in human-blood platelets. Eur. J. Biochem. 1987, 164, 189-195.
30. Pillitteri, D., Bassus, S., Boller, K., Mahnel, R. et al., Throm-bin-induced interleukin 1 beta synthesis in platelet suspen-sions: Impact of contaminating leukocytes. Platelets 2007, 18, 119-127.
31. Pabla, R., Weyrich, A. S., Dixon, D. A., Bray, P. F. et al., Integ-rin-dependent control of translation: Engagement of integ-rin alpha(iib)beta(3) regulates synthesis of proteins in activated human platelets. J. Cell Biol. 1999, 144, 175-184.
32. n-MS experiments. Brief. Bioinform. 2007, 9, 156-165.
33. Clarke, M., Spudich, J. A., Nonmuscle contractile proteins -Role of actin and myosin in cell motility and shape determination. Annu. Rev. Biochem. 1977, 46, 797-822.
34. Polanowska-Grabowska, R., Gear, A. R. L., Heat-shock proteins and platelet function. Platelets 2000, 11, 6-22.
35. 2+-ATPase from human-platelets. J. Biol. Chem. 1982, 257, 4390-4394.
36. Li, Z. Y., Xi, X. D., Gu, M. Y., Feil, R. et al., A stimulatory role for cGMP-dependent protein kinase in platelet activation. Cell 2003, 112, 77-86.
37. Marshall, S. J., Asazuma, N., Best, D., Wonerow, P. et al., Glycoprotein iib-iiia-dependent aggregation by glycopro-tein ib alpha is reinforced by a Src family kinase inhibitor (PP1)-sensitive signalling pathway. Biochem. J. 2002, 361, 297-305.
38. Ohmori, T., Yatomi, Y., Asazuma, N., Satoh, K., Ozaki, Y., Involvement of proline-rich tyrosine kinase 2 in platelet activation: Tyrosine phosphorylation mostly dependent on alpha iib beta 3 integrin and protein kinase C, translocation to the cytoskeleton and association with Shc through Grb2. Biochem. J. 2000, 347, 561-569.
39. Hartwig, J. H., Mechanisms of actin rearrangements mediating platelet activation. J. Cell Biol. 1992, 118, 1421-1442.
40. Perona, J. J., Rould, M. A., Steitz, T. A., Structural basis for transfer-RNA aminoacylation by Escherichia-coli glutaminyl-transfer RNA-synthetase. Biochemistry (Mosc.). 1993, 32, 8758-8771.
41. Hershko, A., Leshinsky, E., Ganoth, D., Heller, H., ATP-dependent degradation of ubiquitin-protein conjugates. Proc. Natl. Acad. Sci. USA 1984, 81, 1619-1623.
42. Fox, J. E. B., Cytoskeletal proteins and platelet signaling. Thromb. Haemost. 2001, 86, 198-213.
43. Qingqi, Z., Stracher, A., Platelet membrane actin may be partially embedded in lipid bilayer and disulfide linked. Biochem. Biophys. Res. Commun. 1998, 252, 407-411.
44. Glenn, J. R., Spangenberg, P., Heptinstall, S., Actin polymerization and depolymerization in relation to platelet shape change, aggregation and disaggregation. Platelets 1996, 7, 23-27.
45. Bantscheff, M., Eberhard, D., Abraham, Y., Bastuck, S. et al., Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors. Nat. Biotechnol. 2007, 25, 1035-1044.
46. Patricelli, M. P., Szardenings, A. K., Liyanage, M., Nomanbhoy, T. K. et al., Functional interrogation of the kinome using nucleotide acyl phosphates. Biochemistry 2007, 46, 350-358.